TMEM255A

Summary

TMEM255A (transmembrane protein 255A, HGNC:26086) is a protein-coding gene on chromosome Xq24, encoding Transmembrane protein 255A (Q5JRV8).

Predicted to act upstream of or within response to bacterium. Predicted to be located in membrane.

Source: NCBI Gene 55026 — RefSeq curated summary.

At a glance

• GWAS associations: 2
• Clinical variants (ClinVar): 214 total
• MANE Select transcript: NM_001104544

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:26086
Approved symbol	TMEM255A
Name	transmembrane protein 255A
Location	Xq24
Locus type	gene with protein product
Status	Approved
Aliases	FLJ20716
Ensembl gene	ENSG00000125355
Ensembl biotype	protein_coding
Entrez	55026

Gene structure

Transcript identifiers

Ensembl transcripts: 11 — 10 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000309720, ENST00000371352, ENST00000371369, ENST00000440464, ENST00000480821, ENST00000519908, ENST00000891651, ENST00000891652, ENST00000891653, ENST00000924824, ENST00000949560

RefSeq mRNA: 3 — MANE Select: NM_001104544 NM_001104544, NM_001104545, NM_017938

CCDS: CCDS14597, CCDS43986, CCDS48157

Canonical transcript exons

ENST00000371369 — 9 exons

Exon	Start	End
ENSE00000854515	120268244	120268387
ENSE00000899864	120276885	120277047
ENSE00000899865	120285127	120285215
ENSE00001038040	120291251	120291340
ENSE00001038044	120304349	120304491
ENSE00001038046	120293989	120294051
ENSE00001038047	120287154	120287222
ENSE00001836733	120258650	120261028
ENSE00003910068	120311252	120311461

Expression profiles

Bgee: expression breadth ubiquitous, 211 present calls, max score 97.57.

FANTOM5 (CAGE): breadth broad, TPM avg 3.5470 / max 138.0088, expressed in 594 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
200340	1.8009	457
200341	1.7132	479
200342	0.0329	10

Top tissues by expression

274 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
substantia nigra pars reticulata	UBERON:0001966	97.57	gold quality
substantia nigra pars compacta	UBERON:0001965	97.26	gold quality
dorsal root ganglion	UBERON:0000044	95.14	gold quality
superior vestibular nucleus	UBERON:0007227	91.37	gold quality
germinal epithelium of ovary	UBERON:0001304	90.85	gold quality
substantia nigra	UBERON:0002038	89.78	gold quality
midbrain	UBERON:0001891	88.93	gold quality
hypothalamus	UBERON:0001898	88.89	gold quality
medulla oblongata	UBERON:0001896	87.55	gold quality
pons	UBERON:0000988	86.88	gold quality
trigeminal ganglion	UBERON:0001675	85.65	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	84.77	silver quality
dorsal motor nucleus of vagus nerve	UBERON:0002870	84.21	gold quality
spinal cord	UBERON:0002240	83.58	gold quality
inferior olivary complex	UBERON:0002127	83.19	silver quality
C1 segment of cervical spinal cord	UBERON:0006469	82.70	gold quality
left ovary	UBERON:0002119	82.43	gold quality
right ovary	UBERON:0002118	81.59	gold quality
ovary	UBERON:0000992	80.42	gold quality
ectocervix	UBERON:0012249	79.47	gold quality
tibial nerve	UBERON:0001323	78.65	gold quality
ventral tegmental area	UBERON:0002691	78.58	gold quality
nucleus accumbens	UBERON:0001882	77.65	gold quality
urethra	UBERON:0000057	76.50	gold quality
amygdala	UBERON:0001876	76.44	gold quality
sural nerve	UBERON:0015488	76.44	gold quality
endocervix	UBERON:0000458	75.84	gold quality
vagina	UBERON:0000996	75.39	gold quality
subthalamic nucleus	UBERON:0001906	74.08	gold quality
pigmented layer of retina	UBERON:0001782	73.28	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	6.32
E-MTAB-6911	no	124.62

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

188 targeting TMEM255A, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-4682	100.00	68.89	1258
HSA-MIR-4262	100.00	73.26	3931
HSA-MIR-34A-5P	99.99	71.21	1784
HSA-MIR-449A	99.99	71.05	1776
HSA-MIR-511-3P	99.99	68.85	1467
HSA-MIR-548C-3P	99.99	74.01	7587
HSA-MIR-548AW	99.99	72.57	3559
HSA-MIR-4803	99.98	71.99	3117
HSA-LET-7F-2-3P	99.98	70.98	2588
HSA-MIR-1185-1-3P	99.98	71.04	2593
HSA-MIR-1185-2-3P	99.98	71.04	2593
HSA-MIR-568	99.98	69.86	2084
HSA-MIR-548P	99.98	72.25	3784
HSA-MIR-32-5P	99.98	75.21	1964
HSA-MIR-92A-3P	99.98	75.21	1960
HSA-MIR-92B-3P	99.98	75.25	1955
HSA-MIR-25-3P	99.98	74.60	1817
HSA-MIR-363-3P	99.98	74.72	1821
HSA-MIR-367-3P	99.98	74.83	1819
HSA-MIR-34C-5P	99.97	70.45	1577
HSA-MIR-449B-5P	99.97	70.26	1580
HSA-MIR-507	99.97	70.11	1915
HSA-MIR-3658	99.96	73.87	4379
HSA-MIR-9-3P	99.96	70.88	2068
HSA-MIR-6825-5P	99.96	69.81	3431
HSA-MIR-590-3P	99.96	74.34	6478
HSA-MIR-559	99.95	72.28	3609
HSA-MIR-548AB	99.95	71.31	3488
HSA-MIR-548A-5P	99.94	71.27	3482
HSA-MIR-548AD-5P	99.94	71.23	3502

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
danio_rerio	tmem255a	ENSDARG00000073911
mus_musculus	Tmem255a	ENSMUSG00000036502
rattus_norvegicus	Tmem255a	ENSRNOG00000028085

Protein

Protein identifiers

Transmembrane protein 255A — Q5JRV8 (reviewed: Q5JRV8)

Alternative names: Protein FAM70A

All UniProt accessions (2): Q5JRV8, E5RFR0

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Membrane.

Similarity. Belongs to the TMEM255 family.

Isoforms (4)

UniProt ID	Names	Canonical?
Q5JRV8-1	1	yes
Q5JRV8-2	2
Q5JRV8-3	3
Q5JRV8-4	4

RefSeq proteins (3): NP_001098014, NP_001098015, NP_060408 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR028014	TMEM255	Family

Pfam: PF14967

UniProt features (13 total): transmembrane region 4, splice variant 4, chain 1, sequence variant 1, sequence conflict 1, region of interest 1, compositionally biased region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q5JRV8-F1	65.64	0.19

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 208 (showing top): TGGTGCT_MIR29A_MIR29B_MIR29C, E2F_Q4_01, LEE_NEURAL_CREST_STEM_CELL_DN, WWTAAGGC_UNKNOWN, TGCGCANK_UNKNOWN, MODULE_255, TGCTGCT_MIR15A_MIR16_MIR15B_MIR195_MIR424_MIR497, ZHAN_MULTIPLE_MYELOMA_MF_UP, SP3_Q3, MODULE_317, IVANOVA_HEMATOPOIESIS_MATURE_CELL, AP4_Q6, LHX3_01, CAGCTG_AP4_Q5, SENESE_HDAC1_AND_HDAC2_TARGETS_DN

GO Biological Process (1): response to bacterium (GO:0009617)

GO Molecular Function (0):

GO Cellular Component (1): membrane (GO:0016020)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
response to other organism	1
cellular anatomical structure	1

Protein interactions and networks

STRING

464 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
TMEM255A	FZD8	Q9H461	516
TMEM255A	SDC4	P31431	508
TMEM255A	LIX1	Q8N485	469
TMEM255A	FURIN	P09958	466
TMEM255A	ANKUB1	A6NFN9	429
TMEM255A	SLC35E4	Q6ICL7	417
TMEM255A	LRRC71	Q8N4P6	394
TMEM255A	GPATCH11	Q8N954	393
TMEM255A	FAM216B	Q8N7L0	363
TMEM255A	ANKRD66	B4E2M5	361
TMEM255A	ATP1B4	Q9UN42	353
TMEM255A	EFCC1	Q9HA90	348
TMEM255A	PDIK1L	Q8N165	342
TMEM255A	RSPO3	Q9BXY4	341
TMEM255A	DYNLT5	Q8N7M0	324

IntAct

4 interactions, top by confidence:

A	B	Type	Score
TMEM255A	WWP2	psi-mi:“MI:0914”(association)	0.530
TMEM255A	CANX	psi-mi:“MI:0914”(association)	0.350

BioGRID (31): SEC24B (Affinity Capture-MS), WWP2 (Affinity Capture-MS), ITCH (Affinity Capture-MS), WWP1 (Affinity Capture-MS), COLGALT2 (Affinity Capture-MS), NEDD4 (Affinity Capture-MS), KCTD2 (Affinity Capture-MS), GCA (Affinity Capture-MS), UBASH3B (Affinity Capture-MS), ANKRD13D (Affinity Capture-MS), GCA (Affinity Capture-MS), KCTD2 (Affinity Capture-MS), ANKRD13D (Affinity Capture-MS), ITCH (Affinity Capture-MS), WWP1 (Affinity Capture-MS)

ESM2 similar proteins: A0A1B0GW64, A2AFR3, A4IFL2, A6QLZ5, A8MVS5, A8MWV9, E1BBQ2, E9Q2Z6, O54693, O73612, P01134, P0C8R9, P18519, P48030, P52795, P52796, P98172, Q0VAQ4, Q0VBP7, Q14CM0, Q15223, Q3MHZ5, Q4FZH1, Q4R566, Q5JRV8, Q5R8M2, Q5RB29, Q5T1S8, Q5T292, Q5VX71, Q6AYP5, Q7TPF1, Q8BHW5, Q8BR63, Q8CA71, Q8IVY1, Q8R5M8, Q91WM6, Q91XV6, Q96DD7

Diamond homologs: Q5FW56, Q5JRV8, Q66IQ1, Q7TMP6, Q8BHW5, Q8WV15, Q9BE63

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

214 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	75
Likely benign	3
Benign	4

Top pathogenic / likely-pathogenic (0)

SpliceAI

1465 predictions. Top by Δscore:

Variant	Effect	Δscore
X:120268239:CATA:C	donor_loss	1.0000
X:120268240:ATAC:A	donor_loss	1.0000
X:120268241:TA:T	donor_loss	1.0000
X:120268242:A:AG	donor_loss	1.0000
X:120268243:C:CG	donor_loss	1.0000
X:120268386:TTC:T	acceptor_loss	1.0000
X:120268387:TCTG:T	acceptor_loss	1.0000
X:120268388:C:T	acceptor_loss	1.0000
X:120268389:T:A	acceptor_loss	1.0000
X:120276878:T:A	donor_gain	1.0000
X:120276879:CCTTA:C	donor_loss	1.0000
X:120276880:CTTAC:C	donor_loss	1.0000
X:120276881:TTA:T	donor_loss	1.0000
X:120276882:TACC:T	donor_loss	1.0000
X:120276883:A:AC	donor_gain	1.0000
X:120276883:ACCAT:A	donor_loss	1.0000
X:120276884:C:CC	donor_gain	1.0000
X:120277043:CCCGG:C	acceptor_gain	1.0000
X:120277044:CCGG:C	acceptor_gain	1.0000
X:120277044:CCGGC:C	acceptor_gain	1.0000
X:120277045:CGG:C	acceptor_gain	1.0000
X:120277045:CGGC:C	acceptor_gain	1.0000
X:120277048:C:CC	acceptor_gain	1.0000
X:120291337:CCAG:C	acceptor_gain	1.0000
X:120291338:CAGC:C	acceptor_gain	1.0000
X:120311247:CTTA:C	donor_loss	1.0000
X:120311248:TTA:T	donor_loss	1.0000
X:120311249:TA:T	donor_loss	1.0000
X:120311250:A:AC	donor_gain	1.0000
X:120311250:AC:A	donor_gain	1.0000

AlphaMissense

2107 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
X:120276904:A:G	L243P	1.000
X:120276910:G:T	A241D	1.000
X:120276913:G:T	A240D	1.000
X:120276925:C:T	G236D	1.000
X:120276926:C:G	G236R	1.000
X:120276934:A:G	L233P	1.000
X:120276938:C:G	G232R	1.000
X:120276945:G:C	N229K	1.000
X:120276945:G:T	N229K	1.000
X:120276967:A:G	L222P	1.000
X:120276970:A:G	L221P	1.000
X:120276979:A:G	L218P	1.000
X:120276997:C:G	C212S	1.000
X:120276998:A:T	C212S	1.000
X:120287194:C:G	C128S	1.000
X:120287195:A:T	C128S	1.000
X:120291274:C:G	G111R	1.000
X:120291274:C:T	G111R	1.000
X:120291276:T:A	D110V	1.000
X:120291276:T:C	D110G	1.000
X:120291276:T:G	D110A	1.000
X:120291277:C:A	D110Y	1.000
X:120291277:C:G	D110H	1.000
X:120291289:A:G	C106R	1.000
X:120291309:C:A	G99V	1.000
X:120291309:C:T	G99D	1.000
X:120291310:C:A	G99C	1.000
X:120291310:C:G	G99R	1.000
X:120291314:G:C	S97R	1.000
X:120291314:G:T	S97R	1.000

dbSNP variants (sampled 300 via entrez): RS1000053298 (X:120272345 T>C), RS1000278739 (X:120252114 C>T), RS1000415724 (X:120252665 A>G), RS1000518018 (X:120266332 C>A), RS1000598945 (X:120266652 A>G), RS1000725191 (X:120255428 T>G), RS1000947204 (X:120310168 G>A), RS1001017380 (X:120300550 G>C), RS1001107940 (X:120290550 T>C), RS1001679949 (X:120295625 A>G), RS1001783266 (X:120286455 G>T), RS1002052897 (X:120298940 G>T), RS1002110375 (X:120288706 C>T), RS1002119299 (X:120296034 A>G), RS1002423510 (X:120298387 A>G)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

2 associations (top):

Study	Trait	p-value
GCST90002393_598	Monocyte count	1.000000e-10
GCST90002407_382	White blood cell count	1.000000e-09

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0005091	monocyte count

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

36 total (human), top 30 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	affects cotreatment, increases expression, affects expression	9
methylmercuric chloride	increases expression, affects cotreatment	3
trichostatin A	affects cotreatment, decreases expression, increases expression	3
aristolochic acid I	decreases expression	1
triphenyl phosphate	affects expression	1
propionaldehyde	increases expression	1
bisphenol A	affects cotreatment, decreases methylation, increases methylation	1
lead acetate	increases expression	1
tris(2-butoxyethyl) phosphate	affects expression	1
arsenite	increases methylation	1
sodium arsenite	decreases expression	1
butyraldehyde	increases expression	1
didecyldimethylammonium	decreases expression	1
aflatoxin B2	increases methylation	1
nickel sulfate	decreases expression	1
pentanal	increases expression	1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide	decreases expression, affects cotreatment, increases expression	1
nutlin 3	affects cotreatment, increases expression	1
2,2’,4,4’-tetrabromodiphenyl ether	decreases expression	1
dorsomorphin	affects cotreatment, increases expression, decreases expression	1
Fulvestrant	affects cotreatment, decreases methylation	1
Air Pollutants	decreases expression, increases abundance	1
Aldehydes	increases expression	1
Amphotericin B	decreases expression	1
Benzo(a)pyrene	increases methylation	1
Dactinomycin	affects cotreatment, increases expression	1
Estradiol	affects cotreatment, decreases expression	1
Nickel	decreases expression	1
Quercetin	decreases expression	1
Rotenone	decreases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.